Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 13 of 343
Found at i:4553847 original size:10 final size:10
Alignment explanation
Indices: 4553822--4553854 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4553812 TTTAATTAAA
4553822 ATTTAAAAAT
1 ATTTAAAAAT
*
4553832 -TTTAAAAGT
1 ATTTAAAAAT
4553841 ATTTAAAAAT
1 ATTTAAAAAT
4553851 ATTT
1 ATTT
4553855 TTTATACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:4554074 original size:23 final size:23
Alignment explanation
Indices: 4554048--4554117 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
4554038 TTTATTTAAC
*
4554048 TTAATCGAATATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
* *
4554071 TTAAACTAACATGTTCACAAACA
1 TTAATCGAACATGTTCACAAACA
* *
4554094 TATAATTGAACATGTTCACGAACA
1 T-TAATCGAACATGTTCACAAACA
4554118 ATGTTAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCACAAACA
Found at i:4554329 original size:18 final size:19
Alignment explanation
Indices: 4554306--4554347 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4554296 ACGTATACAC
4554306 TTTTT-AAATAATTTTTA-A
1 TTTTTAAAAT-ATTTTTATA
4554324 TTTTTAAAATATTTTTATA
1 TTTTTAAAATATTTTTATA
4554343 TTTTT
1 TTTTT
4554348 TTGTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTAAAATATTTTTATA
Found at i:4554907 original size:27 final size:28
Alignment explanation
Indices: 4554870--4554923 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
4554860 TACATTATTT
4554870 AAATTTCAGTTTTTGATA-TCTAAAATTG
1 AAATTTCAGTTTTT-ATATTCTAAAATTG
*
4554898 AAATTT-AGTTTTTATATTTTAAAATT
1 AAATTTCAGTTTTTATATTCTAAAATT
4554924 TCATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 15 0.62
28 6 0.25
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (28 bp):
AAATTTCAGTTTTTATATTCTAAAATTG
Found at i:4555958 original size:20 final size:20
Alignment explanation
Indices: 4555933--4555971 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4555923 GTGAGTATTT
4555933 TTTTTTTAATTTTTAGAATA
1 TTTTTTTAATTTTTAGAATA
4555953 TTTTTTTAATTTTTAGAAT
1 TTTTTTTAATTTTTAGAAT
4555972 GTCATATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTTTAATTTTTAGAATA
Found at i:4557991 original size:20 final size:20
Alignment explanation
Indices: 4557962--4558015 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
4557952 GGGGCACATG
*
4557962 CCCGTGTGGCCTGGGACACC
1 CCCGTGTGGCCTGGAACACC
* **
4557982 CCCGTATGGCCTGGAACATG
1 CCCGTGTGGCCTGGAACACC
4558002 CCCGTGTGGCCTGG
1 CCCGTGTGGCCTGG
4558016 CCATGAGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.11, C:0.35, G:0.35, T:0.19
Consensus pattern (20 bp):
CCCGTGTGGCCTGGAACACC
Found at i:4566586 original size:138 final size:138
Alignment explanation
Indices: 4566328--4566601 Score: 458
Period size: 138 Copynumber: 2.0 Consensus size: 138
4566318 GACGCTACCG
* * *
4566328 ATGCTGATATCTCGTTAGAATTGTCTCTTTCAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAA
1 ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAA
* * * *
4566393 CGTAACAATCATTATAAACTGAATATCAATGAAGCCCTTACTTTGGCAACTACGAGTGATAATTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
4566458 TACATCCA
131 TACATCCA
* * *
4566466 ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAATAAACCCCCAGGGGTTGAAGTTGGTGAA
1 ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAA
4566531 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
66 CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
4566596 TACATC
131 TACATC
4566602 GAAGAAAAGA
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
138 126 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.28
Consensus pattern (138 bp):
ATGCCGATAGCTCGTTAGAATGGTCTCTTTCAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAA
CGTAACAATCATCATAAACTGAAGATCAATGAAGCCCTTACTTTAGCAACTACGAGTGATAAGTT
TACATCCA
Found at i:4566644 original size:138 final size:137
Alignment explanation
Indices: 4566358--4566636 Score: 323
Period size: 138 Copynumber: 2.0 Consensus size: 137
4566348 TTGTCTCTTT
* *
4566358 CAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATTATAAACTGAATATCAAT
1 CAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
* * * * * ** *
4566423 GAAGCCCTTACTTTGGCAACTACGAGTGATAATTTTACATCCAATGCCGATAGCTCGTTAGAATG
66 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATG-CAAAAGCACGAAACAATG
*** **
4566488 GTCTCTTT
130 GAAACTGA
* * *
4566496 CAATGAATAAACCCCCAGGGGTTGAAGTTGGTGAACGTAACAATCATCATAAACTGAAGATCAAT
1 CAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
*
4566561 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCGAA-G-AAAAG-AC-AAACAATGG
66 GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGAAACAAT--
4566622 GGAAACTGA
129 GGAAACTGA
4566631 CGAATG
1 C-AATG
4566637 GAAATAAAAG
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
133 4 0.03
134 1 0.01
135 8 0.07
136 4 0.03
137 1 0.01
138 101 0.85
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (137 bp):
CAATGAATAAACCCCCAAGGGTTGAAGTCGGCGAACGTAACAATCATCATAAACTGAAGATCAAT
GAAGCCCTTACTTTAGCAACTACGAGTGATAAGTTTACATCCAATGCAAAAGCACGAAACAATGG
AAACTGA
Found at i:4578427 original size:44 final size:44
Alignment explanation
Indices: 4578364--4578450 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
4578354 CGGAATTACA
4578364 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATATT
1 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATATT
4578408 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATAT
1 TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATAT
4578451 CGCTAGGACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTCTTATAGCCCAGAAATGATGCATAGCATAATATTGGATATT
Found at i:4586184 original size:18 final size:18
Alignment explanation
Indices: 4586153--4586190 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4586143 CTTTTGGCCA
*
4586153 TCCTCATCAGCATCATTT
1 TCCTCATCAGCATCACTT
4586171 TCCTCATC-GTCATCACTT
1 TCCTCATCAG-CATCACTT
4586189 TC
1 TC
4586191 TGAATCTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.18, C:0.37, G:0.05, T:0.39
Consensus pattern (18 bp):
TCCTCATCAGCATCACTT
Found at i:4586686 original size:29 final size:29
Alignment explanation
Indices: 4586653--4586710 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4586643 CAACTTTACG
4586653 AGCAATCTGAAAGAGAGCAACATAAGCTT
1 AGCAATCTGAAAGAGAGCAACATAAGCTT
4586682 AGCAATCTGAAAGAGAGCAACATAAGCTT
1 AGCAATCTGAAAGAGAGCAACATAAGCTT
4586711 TGTTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (29 bp):
AGCAATCTGAAAGAGAGCAACATAAGCTT
Found at i:4588402 original size:6 final size:6
Alignment explanation
Indices: 4588391--4588418 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4588381 CGGAGATTAA
4588391 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
4588419 GGAATGCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:4608042 original size:24 final size:23
Alignment explanation
Indices: 4607986--4608043 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 23
4607976 AAAATCTAGC
* * *
4607986 TAATATCATTATATTTTTAGAGA
1 TAATATTATTATAATTTTAAAGA
*
4608009 TAAAATTTATTAATAATTTTAAAGA
1 TAATA-TTATT-ATAATTTTAAAGA
4608034 TAATATTATT
1 TAATATTATT
4608044 GAGAGAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.14
24 9 0.32
25 15 0.54
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATATTATTATAATTTTAAAGA
Found at i:4610010 original size:28 final size:28
Alignment explanation
Indices: 4609970--4610023 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
4609960 GGTCCAGTTC
*
4609970 AAACATTCTTAGATAATTGTGGTTGTCG
1 AAACATTCTTAGATAATTGCGGTTGTCG
4609998 AAACATTCTTAGATAATTGCGGTTGT
1 AAACATTCTTAGATAATTGCGGTTGT
4610024 TGATGAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (28 bp):
AAACATTCTTAGATAATTGCGGTTGTCG
Found at i:4620289 original size:51 final size:51
Alignment explanation
Indices: 4620207--4620367 Score: 182
Period size: 51 Copynumber: 3.1 Consensus size: 51
4620197 GGATACAATA
* * * *
4620207 TTTTCAACTTGAGAGCATGATATTCATTTATTTGAGCAAAGAATCCACC-TT
1 TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGCAAA-AATCCACCTTT
* *
4620258 TTTTCAACTTGAGAGCAAGTTGTCCAATTATTTGTGCAAAAATTCCACCTTTTT
1 TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGCAAAAA-TCCACC--TTT
* *
4620312 TTTTCAATTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAAATCCA-CTATT
1 TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGC-AAAAATCCACCT-TT
4620364 TTTT
1 TTTT
4620368 GTTTCAACAA
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
50 2 0.02
51 41 0.43
52 6 0.06
53 1 0.01
54 40 0.42
55 5 0.05
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (51 bp):
TTTTCAACTTGAGAGCAAGTTATCCATTTATTTGTGCAAAAATCCACCTTT
Found at i:4620343 original size:54 final size:53
Alignment explanation
Indices: 4620207--4620375 Score: 193
Period size: 54 Copynumber: 3.2 Consensus size: 53
4620197 GGATACAATA
* * *
4620207 TTTTCAACTTGAGAGCATGATATT-CATTTATTTGAGCAAAGAATCCACC---TT
1 TTTTCAACTTGAGAGCAAG-TTTTCCATTTATTTGTGCAAA-AATCCACCTTTTT
* *
4620258 TTTTCAACTTGAGAGCAAGTTGTCCAATTATTTGTGCAAAAATTCCACCTTTTT
1 TTTTCAACTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAA-TCCACCTTTTT
* *
4620312 TTTTCAATTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAAATCCACTATTTTT
1 TTTTCAACTTGAGAGCAAGTTTTCCATTTATTTGTGC-AAAAATCCAC-CTTTTT
4620367 TGTTTCAAC
1 T-TTTCAAC
4620376 AAGGAAAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
50 4 0.04
51 38 0.38
54 41 0.41
55 11 0.11
56 6 0.06
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (53 bp):
TTTTCAACTTGAGAGCAAGTTTTCCATTTATTTGTGCAAAAATCCACCTTTTT
Found at i:4637495 original size:22 final size:23
Alignment explanation
Indices: 4637453--4637508 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
4637443 GGGCACCCCG
* *
4637453 TCTA-AATATAGAATTATTTTTT
1 TCTATAATTTAGAATTATTTTTA
*
4637475 TCTATAATTTAGATTTA-TTTTA
1 TCTATAATTTAGAATTATTTTTA
4637497 TCATATAATTTA
1 TC-TATAATTTA
4637509 TTAAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (23 bp):
TCTATAATTTAGAATTATTTTTA
Found at i:4637779 original size:22 final size:21
Alignment explanation
Indices: 4637746--4637786 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
4637736 TTAAAACACG
4637746 AATAAATATTATCAGAACTAAA
1 AATAAATATTATCA-AACTAAA
4637768 AATAAA-ACTTATCAAACTA
1 AATAAATA-TTATCAAACTA
4637787 TTTTTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (21 bp):
AATAAATATTATCAAACTAAA
Found at i:4637866 original size:16 final size:15
Alignment explanation
Indices: 4637830--4637868 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
4637820 TTACTGCATT
*
4637830 TTATTTTTAAAATAA
1 TTATTATTAAAATAA
4637845 TATATTATTAAAATAAA
1 T-TATTATTAAAAT-AA
4637862 TTATTAT
1 TTATTAT
4637869 AATTATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.81
17 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATTATTAAAATAA
Found at i:4638776 original size:23 final size:24
Alignment explanation
Indices: 4638743--4638788 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
4638733 TCGAAGCAAT
*
4638743 CCAAACTATTTAA-AATAATTCAA
1 CCAAACAATTTAACAATAATTCAA
4638766 CCAAACAATTTAACAATAATTCA
1 CCAAACAATTTAACAATAATTCA
4638789 TAATAATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (24 bp):
CCAAACAATTTAACAATAATTCAA
Found at i:4640459 original size:22 final size:22
Alignment explanation
Indices: 4640434--4640475 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4640424 TAGTCATATA
4640434 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
4640456 ATAATTTATTATTTTAATAA
1 ATAAATTATTAATATAATAA
4640476 TTATTTAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:4640521 original size:16 final size:16
Alignment explanation
Indices: 4640499--4640535 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
4640489 CAATTTATTT
4640499 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
4640516 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
4640531 TAATA
1 TAATA
4640536 CTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:4641102 original size:14 final size:13
Alignment explanation
Indices: 4641083--4641123 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
4641073 TCAGAAAAGT
4641083 AAATCATTTTCTAG
1 AAATCATTTTC-AG
*
4641097 AAATCATTTTCCG
1 AAATCATTTTCAG
4641110 AAAGTCATTTTCAG
1 AAA-TCATTTTCAG
4641124 TGAAACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (13 bp):
AAATCATTTTCAG
Found at i:4642320 original size:7 final size:6
Alignment explanation
Indices: 4642287--4642319 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
4642277 ATATAAAAAA
4642287 TTATTT TTATTTT TTATTT TTATTT TTATTT TT
1 TTATTT TTA-TTT TTATTT TTATTT TTATTT TT
4642320 TTTAGTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:4649837 original size:35 final size:35
Alignment explanation
Indices: 4649776--4649846 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
4649766 ATATTCATAT
* * **
4649776 TTTAATAATGAATATATATGATTATAATTTATAAA
1 TTTAATAATAAATATATATGAGTATAAAATATAAA
*
4649811 TTTAATAATAAATATTTTAT-AGTATAAAATATAAA
1 TTTAATAATAAATA-TATATGAGTATAAAATATAAA
4649846 T
1 T
4649847 ATTAGTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (35 bp):
TTTAATAATAAATATATATGAGTATAAAATATAAA
Found at i:4655551 original size:54 final size:54
Alignment explanation
Indices: 4655483--4655590 Score: 173
Period size: 54 Copynumber: 2.0 Consensus size: 54
4655473 CTAAGTTGTT
* *
4655483 GGGCTTGGTGTGTGGAGGAGATGGGAAAGAGGTGGTTGCTGC-CACGGGCGGCGG
1 GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGCTGCAC-CGGGCGGCGG
*
4655537 GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGGTGCACCGGGCGGCGG
1 GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGCTGCACCGGGCGGCGG
4655591 AGCTGGAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.17, C:0.12, G:0.53, T:0.19
Consensus pattern (54 bp):
GGGCTTGGTATGTGGAGGAGATGGGAAAAAGGTGGTTGCTGCACCGGGCGGCGG
Found at i:4656354 original size:195 final size:195
Alignment explanation
Indices: 4656022--4656402 Score: 717
Period size: 195 Copynumber: 2.0 Consensus size: 195
4656012 AAAGCAGCGG
*
4656022 GGTGGACGTGCCGGAGTGGTTATTGGGCATGACTAGAAATCATGTGGGCTCTGCCCGCGCAGGTT
1 GGTGGACGTGCCGGAGTGGTTATCGGGCATGACTAGAAATCATGTGGGCTCTGCCCGCGCAGGTT
4656087 CGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTGGCTGCAACTG
66 CGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTGGCTGCAACTG
* *
4656152 CAACCATTATCTTTGTGACTGAGGATAACGGCCTAGTGCTTGAGCAGCCATTGTTCAGACAAAGT
131 CAACCATTATCTTTGTGACTGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTTCAGACAAAGT
4656217 GGTGGACGTGCCGGAGTGGTTATCGGGCATGACTAGAAATCATGTGGGCTCTGCCCGCGCAGGTT
1 GGTGGACGTGCCGGAGTGGTTATCGGGCATGACTAGAAATCATGTGGGCTCTGCCCGCGCAGGTT
* *
4656282 TGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTTCCTGTGGCTGCAACTG
66 CGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTGGCTGCAACTG
4656347 CAACCATTATCTTTGTGACTGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTTC
131 CAACCATTATCTTTGTGACTGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTTC
4656403 TTGTTTCTCT
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
195 181 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (195 bp):
GGTGGACGTGCCGGAGTGGTTATCGGGCATGACTAGAAATCATGTGGGCTCTGCCCGCGCAGGTT
CGAATCCTGCCGTTCACGAATGATATTTCTTTTTATTGCTTTGCTGTTGCCTGTGGCTGCAACTG
CAACCATTATCTTTGTGACTGAGGAAAACGGCCTAGTGCTTGAGCAGCCATCGTTCAGACAAAGT
Found at i:4661229 original size:19 final size:19
Alignment explanation
Indices: 4661183--4661230 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
4661173 GTATATATTT
* *
4661183 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAAGAAGA
*
4661201 TAAATCTTATTTAAGAAGA
1 TAAATTTTATTTAAGAAGA
4661220 TAAATTTTATT
1 TAAATTTTATT
4661231 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAAGAAGA
Found at i:4661313 original size:42 final size:42
Alignment explanation
Indices: 4661254--4661337 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
4661244 TATTTTTATT
*
4661254 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
*
4661296 TTATGTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
4661338 ATTTAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (42 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAACTATTTTTCC
Found at i:4663723 original size:54 final size:54
Alignment explanation
Indices: 4663641--4663750 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
4663631 GAGGGTGTTG
*
4663641 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTCTTTAGGAAGAT
1 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
4663695 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
1 AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
4663749 AA
1 AA
4663751 GTTTTATTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (54 bp):
AAATATGTATATATTTTAAATTTATTTAGGTAGATAAATCTTATTTAGGAAGAT
Found at i:4663740 original size:19 final size:18
Alignment explanation
Indices: 4663657--4663750 Score: 77
Period size: 19 Copynumber: 5.2 Consensus size: 18
4663647 GTATATATTT
4663657 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
* *
4663675 TAAATCTTCTTTAGGAAGA
1 TAAAT-TTATTTAGGTAGA
* **
4663694 TAAATATGTATATA--T-TT
1 TAAAT-T-TATTTAGGTAGA
4663711 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
*
4663729 TAAATCTTATTTAGGAAGA
1 TAAAT-TTATTTAGGTAGA
4663748 TAA
1 TAA
4663751 GTTTTATTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
15 5 0.09
16 1 0.02
17 6 0.10
18 10 0.17
19 32 0.55
20 4 0.07
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:4663757 original size:19 final size:19
Alignment explanation
Indices: 4663711--4663758 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
4663701 GTATATATTT
*
4663711 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGAAGA
*
4663729 TAAATCTTATTTAGGAAGA
1 TAAATTTTATTTAGGAAGA
*
4663748 TAAGTTTTATT
1 TAAATTTTATT
4663759 CATATTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.46
Consensus pattern (19 bp):
TAAATTTTATTTAGGAAGA
Found at i:4666587 original size:14 final size:14
Alignment explanation
Indices: 4666568--4666598 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4666558 GTGATCCAAG
4666568 TGGATCCAAACTGA
1 TGGATCCAAACTGA
4666582 TGGATCCAAACTGA
1 TGGATCCAAACTGA
4666596 TGG
1 TGG
4666599 CAGTCCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (14 bp):
TGGATCCAAACTGA
Found at i:4673815 original size:11 final size:11
Alignment explanation
Indices: 4673799--4673824 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4673789 TACCACATTA
4673799 AAAGATTTGAT
1 AAAGATTTGAT
4673810 AAAGATTTGAT
1 AAAGATTTGAT
4673821 AAAG
1 AAAG
4673825 TATGAGGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (11 bp):
AAAGATTTGAT
Found at i:4677482 original size:52 final size:51
Alignment explanation
Indices: 4677419--4677553 Score: 162
Period size: 52 Copynumber: 2.6 Consensus size: 51
4677409 GACGGGAAAG
* * *
4677419 ATGTAATATGTGCTTTCGTATAAGACCATAGCAGGGCTATGGCATCGGTACA
1 ATGTGATATGTG-TTCCGTATAAGACCATAGCAGGACTATGGCATCGGTACA
* ***
4677471 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGACTATGGCATCGGTGTG
1 ATGTGATATGTGTT-CCGTATAAGACCATAGCAGGACTATGGCATCGGTACA
*
4677523 ATGTGATAATGTGATTCCGTATAATACCATA
1 ATGTGAT-ATGTG-TTCCGTATAAGACCATA
4677554 TTTGGGATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
51 2 0.03
52 49 0.68
53 19 0.26
54 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
ATGTGATATGTGTTCCGTATAAGACCATAGCAGGACTATGGCATCGGTACA
Found at i:4685066 original size:53 final size:52
Alignment explanation
Indices: 4684987--4685090 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 52
4684977 GGAAAAGATA
* *
4684987 TGATATGTGTTCCCGTATAAGACCATAGCTGGGTTATGGCATCGGTGTGATG
1 TGATATGTGTTCCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATG
**
4685039 TGATAATGTGATT-CCGTATAATG-CCATATTTGGGATATGGCATCGGTATGAT
1 TGAT-ATGTG-TTCCCGTATAA-GACCATAGCTGGGATATGGCATCGGTATGAT
4685091 ATGTAATCCG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
52 4 0.09
53 38 0.84
54 3 0.07
ACGTcount: A:0.24, C:0.13, G:0.28, T:0.35
Consensus pattern (52 bp):
TGATATGTGTTCCCGTATAAGACCATAGCTGGGATATGGCATCGGTATGATG
Found at i:4686020 original size:16 final size:17
Alignment explanation
Indices: 4685994--4686027 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
4685984 TTATCACACG
4685994 GCCTGAGCAACACGGGC
1 GCCTGAGCAACACGGGC
4686011 GCCT-AGCAACACGGGC
1 GCCTGAGCAACACGGGC
4686027 G
1 G
4686028 TGTGCTCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.24, C:0.35, G:0.35, T:0.06
Consensus pattern (17 bp):
GCCTGAGCAACACGGGC
Found at i:4689257 original size:22 final size:22
Alignment explanation
Indices: 4689232--4689278 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
4689222 TTATTTTTTC
4689232 TTTTCACCAAA-AAA-TATTATTA
1 TTTT-ACCAAATAAATTA-TATTA
*
4689254 TTTTATCAAATAAATTATATTA
1 TTTTACCAAATAAATTATATTA
4689276 TTT
1 TTT
4689279 AAAAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.23
22 15 0.68
23 2 0.09
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTACCAAATAAATTATATTA
Found at i:4689371 original size:18 final size:19
Alignment explanation
Indices: 4689350--4689389 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4689340 AAACTAAACC
4689350 TTTAT-TTATATCAAATTT
1 TTTATATTATATCAAATTT
*
4689368 TTTATAATTATATCAAGTTT
1 TTTAT-ATTATATCAAATTT
4689388 TT
1 TT
4689390 ATAGATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
20 14 0.74
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTATATTATATCAAATTT
Found at i:4689399 original size:19 final size:20
Alignment explanation
Indices: 4689355--4689392 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4689345 AAACCTTTAT
*
4689355 TTATATCAAATTTTTTATAA
1 TTATATCAAAGTTTTTATAA
4689375 TTATATC-AAGTTTTTATA
1 TTATATCAAAGTTTTTATA
4689393 GATATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATATCAAAGTTTTTATAA
Found at i:4689506 original size:3 final size:3
Alignment explanation
Indices: 4689498--4689526 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4689488 TTAACTTCTG
4689498 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4689527 GATTTAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4689776 original size:28 final size:28
Alignment explanation
Indices: 4689718--4689786 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
4689708 TGCATCCTAG
* * **
4689718 TCATTTAATTATTAATAATTTTAATTTTA
1 TCATTTAATTA-TAAAAATTATAAAATTA
4689747 TCATTTAATTATAAAAATTATAAAATTA
1 TCATTTAATTATAAAAATTATAAAATTA
*
4689775 TCACTTAATTAT
1 TCATTTAATTAT
4689787 TTGATTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 24 0.69
29 11 0.31
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
TCATTTAATTATAAAAATTATAAAATTA
Found at i:4689890 original size:36 final size:36
Alignment explanation
Indices: 4689843--4689911 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
4689833 TACATTATGT
4689843 TAATTTAGTTTTGATTTTAAAAGTTTTAACCCTCAA
1 TAATTTAGTTTTGATTTTAAAAGTTTTAACCCTCAA
4689879 TAATTTAGTTTTGATTTTAAAAGTTTTAACCCT
1 TAATTTAGTTTTGATTTTAAAAGTTTTAACCCT
4689912 TAACAGTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (36 bp):
TAATTTAGTTTTGATTTTAAAAGTTTTAACCCTCAA
Found at i:4697351 original size:73 final size:73
Alignment explanation
Indices: 4697232--4697501 Score: 423
Period size: 73 Copynumber: 3.5 Consensus size: 73
4697222 ATTATTATTT
*
4697232 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
4697297 ATTTTAAG
66 ATTTTAAG
4697305 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
4697370 ATTTTAAG
66 ATTTTAAG
*
4697378 TGGATGTAATGATAAAACTTAGTTGTTGGAAAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTA
1 TGGATGTAATGATGAAAC-------TT----AGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTA
4697443 GGTGGTGATTTATTTTAAG
55 GGTGGTGATTTATTTTAAG
4697462 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
4697502 GTCAAGTTGT
Statistics
Matches: 183, Mismatches: 3, Indels: 22
0.88 0.01 0.11
Matches are distributed among these distances:
73 109 0.60
77 2 0.01
80 2 0.01
84 70 0.38
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:4697466 original size:84 final size:84
Alignment explanation
Indices: 4697325--4697487 Score: 317
Period size: 84 Copynumber: 1.9 Consensus size: 84
4697315 GATGAAACTT
4697325 AGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTTAAGTGGATGTAATGA
1 AGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTTAAGTGGATGTAATGA
4697390 TAAAACTTAGTTGTTGGAA
66 TAAAACTTAGTTGTTGGAA
4697409 AGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTTAAGTGGATGTAATGA
1 AGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTTAAGTGGATGTAATGA
*
4697474 TGAAACTTAGTTGT
66 TAAAACTTAGTTGT
4697488 ATTCCAACTA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (84 bp):
AGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTTAAGTGGATGTAATGA
TAAAACTTAGTTGTTGGAA
Found at i:4701851 original size:73 final size:73
Alignment explanation
Indices: 4701732--4701917 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
4701722 ATTATTATTT
*
4701732 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
4701797 ATTTTAAG
66 ATTTTAAG
4701805 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
4701870 ATTTTAAG
66 ATTTTAAG
4701878 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
4701918 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:4704703 original size:28 final size:31
Alignment explanation
Indices: 4704639--4704703 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 31
4704629 GTTGGAATTG
*
4704639 GAAATAAGTATAAACATATTGGGTCATTTAT
1 GAAAAAAGTATAAACATATTGGGTCATTTAT
*
4704670 GCAAAAAGTA-AAA-ATATT-GGTCATTTAT
1 GAAAAAAGTATAAACATATTGGGTCATTTAT
*
4704698 TAAAAA
1 GAAAAA
4704704 CAGAAAAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 14 0.47
29 5 0.17
30 3 0.10
31 8 0.27
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (31 bp):
GAAAAAAGTATAAACATATTGGGTCATTTAT
Found at i:4705663 original size:17 final size:17
Alignment explanation
Indices: 4705626--4705680 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
4705616 CATTGTTTAT
4705626 TATTAATT-TTATATAAGA
1 TATTAATTATTATA-AA-A
4705644 TATTAATTATTATAAAA
1 TATTAATTATTATAAAA
* *
4705661 TATTATCTTATTAAAAAA
1 TATTA-ATTATTATAAAA
4705679 TA
1 TA
4705681 AATTTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.18
18 22 0.67
19 5 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTAATTATTATAAAA
Found at i:4705771 original size:14 final size:14
Alignment explanation
Indices: 4705742--4705770 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4705732 TTTCACTAAG
4705742 AATAACTTTTAGAA
1 AATAACTTTTAGAA
4705756 AATAA-TTTTAGAA
1 AATAACTTTTAGAA
4705769 AA
1 AA
4705771 AATTGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (14 bp):
AATAACTTTTAGAA
Found at i:4705774 original size:12 final size:13
Alignment explanation
Indices: 4705742--4705774 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
4705732 TTTCACTAAG
4705742 AATAACTTTTAGAA
1 AATAA-TTTTAGAA
4705756 AATAATTTTAGAA
1 AATAATTTTAGAA
4705769 AA-AATT
1 AATAATT
4705775 GTCAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (13 bp):
AATAATTTTAGAA
Found at i:4712855 original size:36 final size:35
Alignment explanation
Indices: 4712800--4712871 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 35
4712790 TGCTGACTTA
4712800 AAATTTTCTTTTTTTTTTGTTATGAATATATAATC
1 AAATTTTCTTTTTTTTTTGTTATGAATATATAATC
4712835 AAATTTTCTTTTTTTTTTTGTTATGAATATATAATC
1 AAATTTTC-TTTTTTTTTTGTTATGAATATATAATC
4712871 A
1 A
4712872 TAAATATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 8 0.22
36 28 0.78
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (35 bp):
AAATTTTCTTTTTTTTTTGTTATGAATATATAATC
Found at i:4718301 original size:8 final size:8
Alignment explanation
Indices: 4718288--4718345 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
4718278 AAAAAATTTT
4718288 TAAAAATA
1 TAAAAATA
4718296 TAAAAATTA
1 TAAAAA-TA
* *
4718305 TAAATATT
1 TAAAAATA
4718313 TCAAAAA-A
1 T-AAAAATA
4718321 TAAAAAT-
1 TAAAAATA
4718328 TAAAAA-A
1 TAAAAATA
4718335 TTAAAAATA
1 -TAAAAATA
4718344 TA
1 TA
4718346 TATAATATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
7 11 0.28
8 17 0.43
9 12 0.30
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (8 bp):
TAAAAATA
Found at i:4718318 original size:25 final size:24
Alignment explanation
Indices: 4718280--4718345 Score: 82
Period size: 25 Copynumber: 2.8 Consensus size: 24
4718270 TTTTCCATAA
*
4718280 AAAATTTTTAAAAATATAAAAATT
1 AAAATATTTAAAAATATAAAAATT
4718304 ATAAATATTTCAAAAA-ATAAAAATT
1 A-AAATATTT-AAAAATATAAAAATT
*
4718329 AAAA-AATTAAAAATATA
1 AAAATATTTAAAAATATA
4718346 TATAATATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 5 0.14
23 6 0.16
24 4 0.11
25 17 0.46
26 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATATTTAAAAATATAAAAATT
Found at i:4718339 original size:15 final size:15
Alignment explanation
Indices: 4718287--4718342 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
4718277 TAAAAAATTT
4718287 TTAAAAA-TATAAAAA
1 TTAAAAATTA-AAAAA
4718302 TTATAAATATTTCAAAAAA
1 TTA-AAA-A-TT-AAAAAA
4718321 -TAAAAATTAAAAAA
1 TTAAAAATTAAAAAA
4718335 TTAAAAAT
1 TTAAAAAT
4718343 ATATATAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
14 6 0.17
15 12 0.34
16 4 0.11
17 4 0.11
18 2 0.06
19 6 0.17
20 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAAAATTAAAAAA
Found at i:4718441 original size:9 final size:9
Alignment explanation
Indices: 4718288--4718448 Score: 86
Period size: 9 Copynumber: 17.7 Consensus size: 9
4718278 AAAAAATTTT
4718288 TAAAAA-TA
1 TAAAAATTA
4718296 TAAAAATTA
1 TAAAAATTA
*
4718305 TAAATATT-
1 TAAAAATTA
4718313 TCAAAAA--A
1 T-AAAAATTA
4718321 TAAAAATTA
1 TAAAAATTA
4718330 -AAAAA-T-
1 TAAAAATTA
4718336 TAAAAATATA
1 TAAAAAT-TA
*
4718346 TATAATATTAA
1 TA-AAAATT-A
*
4718357 TAAAACATATT
1 TAAAA-AT-TA
*
4718368 TAAAATTTTA
1 TAAAA-ATTA
**
4718378 TAAAACGTA
1 TAAAAATTA
**
4718387 TAAAAATCG
1 TAAAAATTA
*
4718396 TAAAAATAA
1 TAAAAATTA
4718405 TATAAAA-TA
1 TA-AAAATTA
*
4718414 TTAAAATTGA
1 TAAAAATT-A
4718424 TAAATAATTA
1 TAAA-AATTA
4718434 TAAAAATTA
1 TAAAAATTA
4718443 TAAAAA
1 TAAAAA
4718449 AATTGTAAGA
Statistics
Matches: 117, Mismatches: 19, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
7 11 0.09
8 17 0.15
9 45 0.38
10 24 0.21
11 19 0.16
12 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:4719000 original size:10 final size:10
Alignment explanation
Indices: 4718987--4719049 Score: 55
Period size: 9 Copynumber: 6.6 Consensus size: 10
4718977 CAATATTTAT
4718987 ATTTTTAATA
1 ATTTTTAATA
*
4718997 A-TTTTATATT
1 ATTTTTA-ATA
4719007 ATTTTTAATA
1 ATTTTTAATA
4719017 A--TTT-ATA
1 ATTTTTAATA
*
4719024 ATTTTT-ATG
1 ATTTTTAATA
4719033 ATTTGTTAATA
1 ATTT-TTAATA
4719044 ATTTTT
1 ATTTTT
4719050 TATGAGAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 14 0.33
10 11 0.26
11 11 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:4719002 original size:17 final size:17
Alignment explanation
Indices: 4718965--4719030 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
4718955 TAATTATATT
*
4718965 TTTTATA-TTTT-ACAA
1 TTTTATATTTTTAATAA
4718980 TATTTATATTTTTAATAA
1 T-TTTATATTTTTAATAA
4718998 TTTTATATTATTTTTAATAA
1 -TTT-TA-TATTTTTAATAA
4719018 -TTTATAATTTTTA
1 TTTTAT-ATTTTTA
4719031 TGATTTGTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.16
17 13 0.30
18 7 0.16
19 3 0.07
20 12 0.28
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATATTTTTAATAA
Found at i:4719028 original size:27 final size:27
Alignment explanation
Indices: 4718994--4719047 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4718984 TATATTTTTA
*
4718994 ATAATTTTATATTATTT-TTAATAATTT
1 ATAATTTT-TATGATTTGTTAATAATTT
4719021 ATAATTTTTATGATTTGTTAATAATTT
1 ATAATTTTTATGATTTGTTAATAATTT
4719048 TTTATGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (27 bp):
ATAATTTTTATGATTTGTTAATAATTT
Found at i:4730918 original size:17 final size:17
Alignment explanation
Indices: 4730896--4730942 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
4730886 AGGATTAGCC
4730896 ATGAAGAAAAAAAAAGA
1 ATGAAGAAAAAAAAAGA
* * *
4730913 ATGAAGAGAAGAGAAGA
1 ATGAAGAAAAAAAAAGA
4730930 ATGAAGAAGAAAA
1 ATGAAGAA-AAAA
4730943 CTAGATCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
ATGAAGAAAAAAAAAGA
Found at i:4737378 original size:24 final size:24
Alignment explanation
Indices: 4737345--4737392 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4737335 TTAAAATAAT
* *
4737345 TTTTTATTTCTATTTATCAAATGTA
1 TTTTTATTTCAATTTA-AAAATGTA
4737370 TTTTT-TTTCAATTTAAAAATGTA
1 TTTTTATTTCAATTTAAAAATGTA
4737393 AAAATGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 9 0.43
25 5 0.24
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTTATTTCAATTTAAAAATGTA
Found at i:4739874 original size:42 final size:42
Alignment explanation
Indices: 4739827--4739924 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
4739817 CAGCCCTAAT
* * * *
4739827 GGGTTTCCGTTTA-TCTATTTTAAGCTTCTGTTTAACCCTTAC
1 GGGTTTCTGTTTAGT-TATTATAAGCTTCCGTTCAACCCTTAC
* *
4739869 GGGTTTCTGTTAAGTTCTTATAAGCTTCCGTTCAACCCTTAC
1 GGGTTTCTGTTTAGTTATTATAAGCTTCCGTTCAACCCTTAC
4739911 GGGTTTCTGTTTAG
1 GGGTTTCTGTTTAG
4739925 CCTTCGGATT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.45
Consensus pattern (42 bp):
GGGTTTCTGTTTAGTTATTATAAGCTTCCGTTCAACCCTTAC
Found at i:4739876 original size:21 final size:21
Alignment explanation
Indices: 4739852--4739923 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
4739842 TATTTTAAGC
4739852 TTCTGTTTAACCCTTACGGGT
1 TTCTGTTTAACCCTTACGGGT
** *** *
4739873 TTCTG-TTAAGTTCTTATAAGC
1 TTCTGTTTAA-CCCTTACGGGT
* *
4739894 TTCCGTTCAACCCTTACGGGT
1 TTCTGTTTAACCCTTACGGGT
4739915 TTCTGTTTA
1 TTCTGTTTA
4739924 GCCTTCGGAT
Statistics
Matches: 33, Mismatches: 16, Indels: 4
0.62 0.30 0.08
Matches are distributed among these distances:
20 4 0.12
21 26 0.79
22 3 0.09
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (21 bp):
TTCTGTTTAACCCTTACGGGT
Found at i:4743598 original size:24 final size:25
Alignment explanation
Indices: 4743570--4743624 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
4743560 GAGTTACCCG
4743570 TTAAGCTCGCATGAGCTTTCTGAT-
1 TTAAGCTCGCATGAGCTTTCTGATA
*** *
4743594 TTAAGCTTTTATGAGCTTTCTGTTA
1 TTAAGCTCGCATGAGCTTTCTGATA
4743619 TTAAGC
1 TTAAGC
4743625 CCGGATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (25 bp):
TTAAGCTCGCATGAGCTTTCTGATA
Found at i:4745630 original size:17 final size:15
Alignment explanation
Indices: 4745598--4745640 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
4745588 AGTTTTTTTA
4745598 TTATATATTTTAACT
1 TTATATATTTTAACT
4745613 TTATATATATTTATACT
1 TTATATAT-TTTA-ACT
4745630 TT-TATACTTTT
1 TTATATA-TTTT
4745641 CTATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 11 0.44
17 6 0.24
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATATATTTTAACT
Found at i:4745671 original size:10 final size:9
Alignment explanation
Indices: 4745629--4745714 Score: 50
Period size: 10 Copynumber: 8.9 Consensus size: 9
4745619 ATATTTATAC
*
4745629 TTTTATACT
1 TTTTATAAT
4745638 TTTCTATAAAT
1 TTT-TAT-AAT
*
4745649 TTTGTCTAAT
1 TTT-TATAAT
4745659 TTTTATAACT
1 TTTTATAA-T
4745669 TTTTGATAA-
1 TTTT-ATAAT
4745678 TTTT-TAAT
1 TTTTATAAT
* *
4745686 TCTTTAAAAA
1 T-TTTATAAT
4745696 TTTTATATAT
1 TTTTATA-AT
4745706 TTTTCATAA
1 TTTT-ATAA
4745715 AAATAATATT
Statistics
Matches: 60, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
7 3 0.05
8 1 0.02
9 19 0.32
10 23 0.38
11 14 0.23
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:4746836 original size:18 final size:20
Alignment explanation
Indices: 4746813--4746851 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
4746803 GAATAAAGTG
4746813 AGGTTT-TGAT-TTAATAGT
1 AGGTTTATGATGTTAATAGT
4746831 AGGTTTAATGATGTTAATAGT
1 AGGTTT-ATGATGTTAATAGT
4746852 TTAGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
AGGTTTATGATGTTAATAGT
Found at i:4750391 original size:25 final size:26
Alignment explanation
Indices: 4750331--4750379 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4750321 ATTTGTCTTA
*
4750331 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
4750355 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
4750380 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:4754230 original size:24 final size:24
Alignment explanation
Indices: 4754203--4754254 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4754193 TTAGTAAGTC
*
4754203 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4754227 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4754251 AAAT
1 AAAT
4754255 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4756198 original size:24 final size:24
Alignment explanation
Indices: 4756171--4756222 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4756161 TTAGTAAGTC
*
4756171 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4756195 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4756219 AAAT
1 AAAT
4756223 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4764051 original size:12 final size:12
Alignment explanation
Indices: 4764024--4764068 Score: 65
Period size: 13 Copynumber: 3.7 Consensus size: 12
4764014 AAAAAATCAT
4764024 AAAATTTATAAAC
1 AAAATTTAT-AAC
4764037 AAAATTTATAAC
1 AAAATTTATAAC
4764049 AAAAATTTATAA-
1 -AAAATTTATAAC
4764061 AAAATTTA
1 AAAATTTA
4764069 AATTTATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.26
12 3 0.10
13 20 0.65
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTTATAAC
Found at i:4765062 original size:61 final size:61
Alignment explanation
Indices: 4764962--4765088 Score: 186
Period size: 61 Copynumber: 2.1 Consensus size: 61
4764952 AACTACGTCA
* *
4764962 AGAA-ACATAAAAGTTAAAAAAAATAAAAAATCAATATTTTTACTTTTTTGCGTTTTTTCAG
1 AGAATACATAAAAGGTAAAAAAAATAAAAAATCAATATTTTTACTTTTTTACGTTTTTT-AG
* * *
4765023 AGAATACATAAAAGGT-AAAAAAATAGAAAATCAATATTTTTATTTTTTTATGTTTTTTAG
1 AGAATACATAAAAGGTAAAAAAAATAAAAAATCAATATTTTTACTTTTTTACGTTTTTTAG
4765083 AGAATA
1 AGAATA
4765089 GATATTCGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 8 0.13
61 42 0.70
62 10 0.17
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (61 bp):
AGAATACATAAAAGGTAAAAAAAATAAAAAATCAATATTTTTACTTTTTTACGTTTTTTAG
Found at i:4766619 original size:21 final size:21
Alignment explanation
Indices: 4766573--4766619 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4766563 ACCATTATTC
* *
4766573 CTAATCTCTTTATTATAATAT
1 CTAATCTCATTATTATAATAA
* *
4766594 TTAATCTCATTATTATCATAA
1 CTAATCTCATTATTATAATAA
4766615 CTAAT
1 CTAAT
4766620 TTTATCGCTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
CTAATCTCATTATTATAATAA
Found at i:4768169 original size:31 final size:31
Alignment explanation
Indices: 4768112--4768170 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
4768102 GTATAATTCA
*
4768112 TATTAGAGTTAAACCGAAAAATTTAATTTTT
1 TATTAGAGTTAAACCGAAAAACTTAATTTTT
* *
4768143 TATTCGAGTTAATCC-AAATAACTTAATT
1 TATTAGAGTTAAACCGAAA-AACTTAATT
4768171 AACTCAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (31 bp):
TATTAGAGTTAAACCGAAAAACTTAATTTTT
Found at i:4769245 original size:58 final size:58
Alignment explanation
Indices: 4769163--4769281 Score: 229
Period size: 58 Copynumber: 2.1 Consensus size: 58
4769153 TTTTTATTGG
*
4769163 TCACCACCTCCAATTTAAAAGATAATAACTTTTTTAGGTATCGTTGTTACTATTGGCA
1 TCACCACCTCCAATTTAAAAGATAATAACTTTTTTAGGTATCGTTATTACTATTGGCA
4769221 TCACCACCTCCAATTTAAAAGATAATAACTTTTTTAGGTATCGTTATTACTATTGGCA
1 TCACCACCTCCAATTTAAAAGATAATAACTTTTTTAGGTATCGTTATTACTATTGGCA
4769279 TCA
1 TCA
4769282 TTAGACTGAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (58 bp):
TCACCACCTCCAATTTAAAAGATAATAACTTTTTTAGGTATCGTTATTACTATTGGCA
Found at i:4769879 original size:52 final size:51
Alignment explanation
Indices: 4769802--4769905 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 51
4769792 AAATTGCGTC
* * * *
4769802 ACCACTTTTCTATCAAATTAAAAAGGGTAATTGCTTCGTCGTATCTTTGAA
1 ACCACTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
4769853 ACCACTTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
1 ACCAC-TTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
4769905 A
1 A
4769906 TTTTTATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
51 5 0.10
52 43 0.90
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (51 bp):
ACCACTTTTCCATCAAAGTAAAAAGGGTAATTGCTTCATCATATCTTTGAA
Found at i:4772214 original size:66 final size:67
Alignment explanation
Indices: 4772054--4772216 Score: 168
Period size: 66 Copynumber: 2.5 Consensus size: 67
4772044 CATGTCTCCT
* * * *
4772054 AGCCCGTTTCCAAAAATTAGATCGATGGAATGTCATCTATTATATTTGTGACAACATAAGTCTCT
1 AGCCAGTTTCCAAAAATTAGATCGATGGAATGCCATCTAATATATTTGTGACAACATAAATCTCT
4772119 TA
66 TA
* * * * * * * * *
4772121 ATCTA-TTTCCGAGATTTAGATCGATGGAATGCCGTCTAATGTATTTGTGGCAACGTAAATCTCT
1 AGCCAGTTTCCAAAAATTAGATCGATGGAATGCCATCTAATATATTTGTGACAACATAAATCTCT
4772185 T-
66 TA
* * *
4772186 GGCCAGTTTCCAAAAATTAAATCTATGGAAT
1 AGCCAGTTTCCAAAAATTAGATCGATGGAAT
4772217 ATTATCTGCT
Statistics
Matches: 74, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
65 2 0.03
66 70 0.95
67 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (67 bp):
AGCCAGTTTCCAAAAATTAGATCGATGGAATGCCATCTAATATATTTGTGACAACATAAATCTCT
TA
Found at i:4775784 original size:21 final size:21
Alignment explanation
Indices: 4775760--4775805 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
4775750 CTTCTTTTTT
4775760 TTTTCTCTTCTTTGATCTTTC
1 TTTTCTCTTCTTTGATCTTTC
* * *
4775781 TTTTTTTTTTTTTGATCTTTC
1 TTTTCTCTTCTTTGATCTTTC
4775802 TTTT
1 TTTT
4775806 TCTAGGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTCTCTTCTTTGATCTTTC
Found at i:4778199 original size:22 final size:22
Alignment explanation
Indices: 4778148--4778209 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
4778138 TATATATAAA
* *
4778148 AAAATATATGAATATATTTTAT
1 AAAATATTTAAATATATTTTAT
*
4778170 AAAATATTTAAATATTTTTTAT
1 AAAATATTTAAATATATTTTAT
*
4778192 ACAATATTTAGAAT-TATT
1 AAAATATTTA-AATATATT
4778210 GTTGATATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 31 0.91
23 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (22 bp):
AAAATATTTAAATATATTTTAT
Found at i:4781302 original size:25 final size:23
Alignment explanation
Indices: 4781250--4781304 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
4781240 TATAAATAGT
4781250 AATAGTGTTAGAAATATACGATA
1 AATAGTGTTAGAAATATACGATA
* *
4781273 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACGAT-A
4781298 AATAGTG
1 AATAGTG
4781305 AAAACATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACGATA
Found at i:4781634 original size:24 final size:24
Alignment explanation
Indices: 4781607--4781659 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4781597 ATTAAAAAGC
*
4781607 ATATACATATATGTATATAACATA
1 ATATACATATATGTACATAACATA
** * *
4781631 ATATTTATATATGTACATAAGATG
1 ATATACATATATGTACATAACATA
4781655 ATATA
1 ATATA
4781660 AAAATATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.40
Consensus pattern (24 bp):
ATATACATATATGTACATAACATA
Found at i:4781717 original size:2 final size:2
Alignment explanation
Indices: 4781710--4781751 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
4781700 AATAACATTA
* *
4781710 AT AT AT AT AT AT AT AT AT AT A- AA AT AC AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4781750 AT
1 AT
4781752 TAGAAATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:4781843 original size:19 final size:19
Alignment explanation
Indices: 4781819--4781855 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4781809 TATAAATAAT
*
4781819 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
4781838 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
4781856 TATAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:4781990 original size:30 final size:30
Alignment explanation
Indices: 4781937--4782011 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
4781927 TTGAAAACAT
*
4781937 ATATACATAATATATACGAAAAATATATAG
1 ATATACATAATATATACGAAAAATATATAC
** *
4781967 ATATACATAATATAATA-TTAAAATATTTAC
1 ATATACATAATAT-ATACGAAAAATATATAC
4781997 ATAATACATAA-ATAT
1 AT-ATACATAATATAT
4782012 TAGGGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 26 0.67
31 11 0.28
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.35
Consensus pattern (30 bp):
ATATACATAATATATACGAAAAATATATAC
Found at i:4782057 original size:12 final size:12
Alignment explanation
Indices: 4782040--4782100 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
4782030 ATAATAATGC
*
4782040 TACATAAGTATA
1 TACATAAATATA
4782052 TACATAAATATA
1 TACATAAATATA
*
4782064 TTA-A-AAACATA
1 -TACATAAATATA
*
4782075 TACATATATATA
1 TACATAAATATA
* *
4782087 TAAATAAAAATA
1 TACATAAATATA
4782099 TA
1 TA
4782101 TATACACTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
10 2 0.05
11 7 0.18
12 28 0.72
13 2 0.05
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.33
Consensus pattern (12 bp):
TACATAAATATA
Found at i:4784018 original size:19 final size:19
Alignment explanation
Indices: 4783994--4784107 Score: 63
Period size: 19 Copynumber: 5.8 Consensus size: 19
4783984 CAAAATTATT
4783994 ATTTTAGAAATTTTTTAAA
1 ATTTTAGAAATTTTTTAAA
*
4784013 ATTTTA-AATTTTTTTTATATA
1 ATTTTAGAA-ATTTTTTA-A-A
4784034 TATTTTAG-AATTTTTTAAAA
1 -ATTTTAGAAATTTTTT-AAA
** * *
4784054 AAATTATATATTTTTTAAA
1 ATTTTAGAAATTTTTTAAA
* * * *
4784073 ATCTTATAAATATTTT-GA
1 ATTTTAGAAATTTTTTAAA
*
4784091 ATTTTAAAAATTATTTT
1 ATTTTAGAAATT-TTTT
4784108 GATTTTTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
18 12 0.16
19 36 0.49
20 9 0.12
21 8 0.11
22 8 0.11
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (19 bp):
ATTTTAGAAATTTTTTAAA
Found at i:4784068 original size:41 final size:41
Alignment explanation
Indices: 4783993--4784070 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
4783983 CCAAAATTAT
** *
4783993 TATTTTAGAAATTTTTTAAAATTTTAAATTTTTTTTATATA
1 TATTTTAGAAATTTTTTAAAAAATTAAATATTTTTTATATA
*
4784034 TATTTTAG-AATTTTTTAAAAAAATTATATATTTTTTA
1 TATTTTAGAAATTTTTT-AAAAAATTAAATATTTTTTA
4784071 AAATCTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 8 0.25
41 24 0.75
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (41 bp):
TATTTTAGAAATTTTTTAAAAAATTAAATATTTTTTATATA
Found at i:4785541 original size:26 final size:26
Alignment explanation
Indices: 4785488--4785550 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 26
4785478 AAAATAAAAG
4785488 AAAAATAAATAAAAATTCTGAAACTTTT
1 AAAAA-AAA-AAAAATTCTGAAACTTTT
4785516 AAAAAAAAAAAACATTCTGAAA-TTTT
1 AAAAAAAAAAAA-ATTCTGAAACTTTT
*
4785542 CAAAAAAAA
1 AAAAAAAAA
4785551 TTGAAATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
26 16 0.48
27 12 0.36
28 5 0.15
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.25
Consensus pattern (26 bp):
AAAAAAAAAAAAATTCTGAAACTTTT
Found at i:4788088 original size:12 final size:12
Alignment explanation
Indices: 4788071--4788103 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
4788061 TATTTTTTAG
4788071 TTATTTACTCAC
1 TTATTTACTCAC
*
4788083 TTATTTATTCAC
1 TTATTTACTCAC
4788095 TTATTTACT
1 TTATTTACT
4788104 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:4789398 original size:11 final size:11
Alignment explanation
Indices: 4789382--4789411 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
4789372 TTTTATTAAA
*
4789382 AATATTTTTTT
1 AATATTATTTT
4789393 AATATTATTTT
1 AATATTATTTT
4789404 AATATTAT
1 AATATTAT
4789412 AAAAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
AATATTATTTT
Found at i:4793733 original size:46 final size:44
Alignment explanation
Indices: 4793629--4793736 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
4793619 TGTCTTTGAC
** * * *
4793629 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
4793673 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
4793719 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
4793737 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:4804872 original size:16 final size:16
Alignment explanation
Indices: 4804851--4804881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4804841 ATTTCCTAAT
*
4804851 AATAATTAATTAATGC
1 AATAATTAAATAATGC
4804867 AATAATTAAATAATG
1 AATAATTAAATAATG
4804882 AATTTTCCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AATAATTAAATAATGC
Found at i:4810248 original size:2 final size:2
Alignment explanation
Indices: 4810241--4810270 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4810231 TTATTCTCGC
4810241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4810271 TTTTAAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4810302 original size:28 final size:29
Alignment explanation
Indices: 4810254--4810320 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
4810244 TATATATATA
* *
4810254 TATATATATATATATATTTTTAAAT-TCAT
1 TATATGTATATATATACTTTTAAATCT-AT
*
4810283 T-TATGTATATATATGCTTTTAAATCTAT
1 TATATGTATATATATACTTTTAAATCTAT
4810311 TATATGTATA
1 TATATGTATA
4810321 AGTGTTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 23 0.70
29 10 0.30
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (29 bp):
TATATGTATATATATACTTTTAAATCTAT
Found at i:4811505 original size:131 final size:127
Alignment explanation
Indices: 4811319--4811651 Score: 414
Period size: 131 Copynumber: 2.6 Consensus size: 127
4811309 AAAAATTCCT
* * * * *
4811319 TAAAACGAAGACAATGTTTGATGTTTGGAAATTCAGGAAATCGTGCCCTACCGTGCTGGGTTTCA
1 TAAAAC-AAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCG
* * * *
4811384 ATTTCTCGTTTGTTCAAAATAATCGAACCTTCCTTTAGAATTTCATTCGTGTTTTTTTCCTAAAT
65 ATTTCTCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTTCATTC--GTATTCTT--TAAAT
4811449 TC
126 TC
* * * *
4811451 TAAAATAAGGCAATGTTTGACGCTTGGAAATTCGGGGAATCATGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGA
* * * *
4811516 TCTCTTGTCTGTTCAAAATAATCAAATATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
66 TTTCTCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
** * * *
4811578 TAAAACAAGGCAATGTTCAATGTTTGGAAGTTCGAGGAATCATGCCCTACCGTGATGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGA
*
4811643 TTTTTCGTT
66 TTTCTCGTT
4811652 GGACTAAATA
Statistics
Matches: 171, Mismatches: 30, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
127 68 0.40
129 6 0.04
131 92 0.54
132 5 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGA
TTTCTCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTTCATTCGTATTCTTTAAATTC
Found at i:4816027 original size:14 final size:14
Alignment explanation
Indices: 4816008--4816039 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4815998 GTTTCACTGG
*
4816008 AAATATTTTTTGTA
1 AAATATTTTTTATA
4816022 AAATATTTTTTATA
1 AAATATTTTTTATA
4816036 AAAT
1 AAAT
4816040 GGATTGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATATTTTTTATA
Found at i:4825913 original size:17 final size:17
Alignment explanation
Indices: 4825891--4825935 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
4825881 CGAATATGTT
4825891 TTTTGAATTTTTTCTTC
1 TTTTGAATTTTTTCTTC
* *
4825908 TTTTGATTTTTTTTTTC
1 TTTTGAATTTTTTCTTC
*
4825925 TTCTGAATTTT
1 TTTTGAATTTT
4825936 ACAAATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.11, C:0.09, G:0.07, T:0.73
Consensus pattern (17 bp):
TTTTGAATTTTTTCTTC
Found at i:4826021 original size:28 final size:26
Alignment explanation
Indices: 4825949--4826052 Score: 77
Period size: 28 Copynumber: 3.8 Consensus size: 26
4825939 AATTATTATA
* *
4825949 TATAATTTTTGAGTTTTTTTTTTAAATTGT
1 TATAATTTTT-ACTATTTTTTTTAAA---T
* *
4825979 TATACTTTTTA-TATTTTTTTCTAATT
1 TATAATTTTTACTATTTTTTT-TAAAT
4826005 TGA-AATTTTTACCTATTATTTTTTAAAT
1 T-ATAATTTTTA-CTATT-TTTTTTAAAT
*
4826033 TATAATTTTTATTATTTTTT
1 TATAATTTTTACTATTTTTT
4826053 GAAATGTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
26 13 0.21
27 6 0.10
28 25 0.40
29 9 0.15
30 9 0.15
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (26 bp):
TATAATTTTTACTATTTTTTTTAAAT
Found at i:4826063 original size:25 final size:25
Alignment explanation
Indices: 4826018--4826068 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 25
4826008 AATTTTTACC
4826018 TATTATTTTTTAAATTATAAT-TTT
1 TATTATTTTTTAAATTATAATATTT
4826042 TATTATTTTTTGAAATGT-TAATATTT
1 TATTATTTTTT-AAAT-TATAATATTT
4826068 T
1 T
4826069 TTTTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TATTATTTTTTAAATTATAATATTT
Found at i:4828496 original size:19 final size:20
Alignment explanation
Indices: 4828468--4828506 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4828458 TCCCATTATT
4828468 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
4828487 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
4828507 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:4828524 original size:25 final size:23
Alignment explanation
Indices: 4828487--4828532 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
4828477 TTTGTTTTAA
*
4828487 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
4828510 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
4828533 ATTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:4835377 original size:14 final size:15
Alignment explanation
Indices: 4835339--4835369 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
4835329 CTTTATAATA
4835339 AAATCTATTT-TTAT
1 AAATCTATTTGTTAT
4835353 AAATCTATTTGTTAT
1 AAATCTATTTGTTAT
4835368 AA
1 AA
4835370 TTTATTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (15 bp):
AAATCTATTTGTTAT
Found at i:4835757 original size:80 final size:80
Alignment explanation
Indices: 4835624--4835785 Score: 324
Period size: 80 Copynumber: 2.0 Consensus size: 80
4835614 CTTGTTCACT
4835624 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
1 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
4835689 TTGGTTTCATGAATA
66 TTGGTTTCATGAATA
4835704 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
1 TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
4835769 TTGGTTTCATGAATA
66 TTGGTTTCATGAATA
4835784 TC
1 TC
4835786 AAATATTTCT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (80 bp):
TCTCTCACCTATCAATGAATGCCAATTACCTTTCACATTAGTCAATTATATACCTTTCAAACCTT
TTGGTTTCATGAATA
Found at i:4838812 original size:25 final size:25
Alignment explanation
Indices: 4838783--4838831 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
4838773 CAAAGGAAAA
**
4838783 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
4838808 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCTAATTTAAA
4838832 TTTTATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:4838833 original size:13 final size:13
Alignment explanation
Indices: 4838783--4838833 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
4838773 CAAAGGAAAA
*
4838783 TCCTAATCT-AAT
1 TCCTAATTTAAAT
*
4838795 TCCTAATTTAAAG
1 TCCTAATTTAAAT
4838808 TCCTAA--TAGAAT
1 TCCTAATTTA-AAT
4838820 TCCTAATTTAAAT
1 TCCTAATTTAAAT
4838833 T
1 T
4838834 TTATAAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 2 0.06
12 16 0.50
13 12 0.38
14 2 0.06
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (13 bp):
TCCTAATTTAAAT
Found at i:4845222 original size:15 final size:15
Alignment explanation
Indices: 4845202--4845244 Score: 63
Period size: 13 Copynumber: 3.0 Consensus size: 15
4845192 AGGCAAGTGT
4845202 TAACTTTTCATTCTC
1 TAACTTTTCATTCTC
4845217 TAAC--TTCATTCTC
1 TAACTTTTCATTCTC
*
4845230 TAACTTTTCAGTCTC
1 TAACTTTTCATTCTC
4845245 CAGGTCTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 13 0.52
15 12 0.48
ACGTcount: A:0.21, C:0.28, G:0.02, T:0.49
Consensus pattern (15 bp):
TAACTTTTCATTCTC
Found at i:4848458 original size:3 final size:3
Alignment explanation
Indices: 4848436--4848472 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
4848426 ACCTTCCACT
* *
4848436 CCA CCA TCA CCA CCA TCA CCA CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
4848473 AACAACAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.32, C:0.62, G:0.00, T:0.05
Consensus pattern (3 bp):
CCA
Found at i:4850709 original size:18 final size:18
Alignment explanation
Indices: 4850686--4850720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4850676 TTTCAAATCA
*
4850686 TTTTTATAATTAATTAAT
1 TTTTTAAAATTAATTAAT
*
4850704 TTTTTAAAATTATTTAA
1 TTTTTAAAATTAATTAA
4850721 AATAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTAAAATTAATTAAT
Found at i:4856246 original size:29 final size:27
Alignment explanation
Indices: 4856200--4856256 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
4856190 TAATTGTATA
* *
4856200 AAAAATAATTTTTATTTTTATATTTAT
1 AAAAATAATTTTCATTTTAATATTTAT
*
4856227 AAAAATATATTTTACATTTTAATTTTTAT
1 AAAAATA-ATTTT-CATTTTAATATTTAT
4856256 A
1 A
4856257 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.28
28 5 0.20
29 13 0.52
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
AAAAATAATTTTCATTTTAATATTTAT
Found at i:4856251 original size:27 final size:27
Alignment explanation
Indices: 4856189--4856251 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
4856179 TATTACAATA
*
4856189 TTAATTGTATAAAAAATAATTTTTATTT
1 TTAATT-TATAAAAAATAATTTTTAATT
4856217 TTATATTTAT-AAAAAT-ATATTTTACATT
1 TTA-ATTTATAAAAAATAAT-TTTTA-ATT
4856245 TTAATTT
1 TTAATTT
4856252 TTATATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 2 0.06
27 15 0.48
28 11 0.35
29 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (27 bp):
TTAATTTATAAAAAATAATTTTTAATT
Found at i:4866889 original size:9 final size:8
Alignment explanation
Indices: 4866864--4866911 Score: 53
Period size: 9 Copynumber: 5.6 Consensus size: 8
4866854 GGTTAATAAT
4866864 AATTT-AA
1 AATTTAAA
4866871 AATATTAAA
1 AAT-TTAAA
4866880 ATATTTAAA
1 A-ATTTAAA
4866889 AATTTAAGA
1 AATTTAA-A
4866898 AATTTAAGA
1 AATTTAA-A
4866907 AATTT
1 AATTT
4866912 TTTTTATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 3 0.08
8 8 0.22
9 24 0.65
10 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (8 bp):
AATTTAAA
Found at i:4866895 original size:17 final size:17
Alignment explanation
Indices: 4866864--4866911 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
4866854 GGTTAATAAT
4866864 AATTT-AAAATATTAA-A
1 AATTTAAAAAT-TTAAGA
4866880 ATATTTAAAAATTTAAGA
1 A-ATTTAAAAATTTAAGA
4866898 AATTTAAGAAATTT
1 AATTTAA-AAATTT
4866912 TTTTTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.04
17 14 0.50
18 13 0.46
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
AATTTAAAAATTTAAGA
Found at i:4871345 original size:120 final size:122
Alignment explanation
Indices: 4871116--4871353 Score: 381
Period size: 120 Copynumber: 2.0 Consensus size: 122
4871106 TTATTATAAA
* *
4871116 TAAATAAAAATGAAAGAGGACAAAATAACTAAATATGAAAATATATTTAGTAACAGAAAAAATTA
1 TAAATAAAAATGAAAGAGAACAAAATAACTAAATATGAAAATATATTTAATAACAGAAAAAATTA
*
4871181 ATTAGCATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAGAGAT
66 ATTAACATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAGAGAT
* *
4871238 TAAATAAAAAT-AAAGAGAATAAAATAACTAAATATGAAATTATATTTAATAACAG-AAAAATTA
1 TAAATAAAAATGAAAGAGAACAAAATAACTAAATATGAAAATATATTTAATAACAGAAAAAATTA
* ** *
4871301 ATTAACATAACATCGATGTTTCAGGATTAAAATTAAAATTATTTAAAATTTAG
66 ATTAACATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAG
4871354 GAAAGTGAAA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
120 56 0.52
121 40 0.37
122 11 0.10
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.30
Consensus pattern (122 bp):
TAAATAAAAATGAAAGAGAACAAAATAACTAAATATGAAAATATATTTAATAACAGAAAAAATTA
ATTAACATAACATCGATATTTCAAAATTAAAATTAAAATGATTTAAAATTTAGAGAT
Found at i:4878241 original size:21 final size:21
Alignment explanation
Indices: 4878194--4878241 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
4878184 GTCTTAAATT
* *
4878194 TTTTTTATATAATTTTACTAA
1 TTTTTAATACAATTTTACTAA
4878215 TATTTTAATACAATTTT-CTATA
1 T-TTTTAATACAATTTTACTA-A
4878237 TTTTT
1 TTTTT
4878242 CTATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTAATACAATTTTACTAA
Found at i:4879677 original size:2 final size:2
Alignment explanation
Indices: 4879670--4879695 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4879660 ACTAAATCAG
4879670 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4879696 CTTATGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4881805 original size:35 final size:35
Alignment explanation
Indices: 4881759--4881827 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
4881749 TGAATTGGTT
4881759 GCTAAAATTTGCTTGATCATAATCACTTTGAAATC
1 GCTAAAATTTGCTTGATCATAATCACTTTGAAATC
4881794 GCTAAAATTTGCTTGATCATAATCACTTTGAAAT
1 GCTAAAATTTGCTTGATCATAATCACTTTGAAAT
4881828 ACTATGTAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (35 bp):
GCTAAAATTTGCTTGATCATAATCACTTTGAAATC
Found at i:4888778 original size:12 final size:13
Alignment explanation
Indices: 4888761--4888793 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4888751 ATAAATATTA
4888761 TTTTATTA-ATAT
1 TTTTATTAGATAT
*
4888773 TTTTATGAGATAT
1 TTTTATTAGATAT
4888786 TTTTATTA
1 TTTTATTA
4888794 TTATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (13 bp):
TTTTATTAGATAT
Found at i:4890711 original size:46 final size:46
Alignment explanation
Indices: 4890649--4890876 Score: 314
Period size: 46 Copynumber: 5.0 Consensus size: 46
4890639 GCTCTCTGAT
** * *
4890649 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
4890695 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
4890741 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
4890787 ATGAAATGGATAAGACCATGGTTGAAAGATACTATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
4890833 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
4890877 TCAAAGATAA
Statistics
Matches: 164, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 163 0.99
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:4891178 original size:16 final size:17
Alignment explanation
Indices: 4891157--4891189 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4891147 ATGATGGAGC
4891157 ATGAAA-CATTGATATA
1 ATGAAATCATTGATATA
*
4891173 ATGAAATGATTGATATA
1 ATGAAATCATTGATATA
4891190 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (17 bp):
ATGAAATCATTGATATA
Found at i:4892731 original size:46 final size:46
Alignment explanation
Indices: 4892664--4892792 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
4892654 TGTAACCCGC
* * *
4892664 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
4892710 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
4892756 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
4892793 TGCCCAAACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:4895777 original size:3 final size:3
Alignment explanation
Indices: 4895771--4895795 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4895761 TCATTTTAGT
4895771 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4895796 AGGGTTGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Done.